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This page was generated on 2023-05-26 06:18:04 -0000 (Fri, 26 May 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.0 (2023-04-21) -- "Already Tomorrow" 4254
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BUILD results for BBCAnalyzer on kunpeng2


To the developers/maintainers of the BBCAnalyzer package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BBCAnalyzer.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 138/2197HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BBCAnalyzer 1.31.0  (landing page)
Sarah Sandmann
Snapshot Date: 2023-05-25 13:29:39 -0000 (Thu, 25 May 2023)
git_url: https://git.bioconductor.org/packages/BBCAnalyzer
git_branch: devel
git_last_commit: 21a0f03
git_last_commit_date: 2023-04-25 14:41:00 -0000 (Tue, 25 Apr 2023)
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

Summary

Package: BBCAnalyzer
Version: 1.31.0
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data BBCAnalyzer
StartedAt: 2023-05-25 20:23:33 -0000 (Thu, 25 May 2023)
EndedAt: 2023-05-25 20:33:43 -0000 (Thu, 25 May 2023)
EllapsedTime: 609.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data BBCAnalyzer
###
##############################################################################
##############################################################################


* checking for file ‘BBCAnalyzer/DESCRIPTION’ ... OK
* preparing ‘BBCAnalyzer’:
* checking DESCRIPTION meta-information ... OK
* installing the package to process help pages
* saving partial Rd database
* creating vignettes ... ERROR
--- re-building ‘BBCAnalyzer.Rnw’ using Sweave
Loading required package: BSgenome
Loading required package: BiocGenerics

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame,
    basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep,
    grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax,
    pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:utils’:

    findMatches

The following objects are masked from ‘package:base’:

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: Biostrings
Loading required package: XVector

Attaching package: ‘Biostrings’

The following object is masked from ‘package:base’:

    strsplit

Loading required package: rtracklayer
Determine Target
Analyze Reads
Sample 1 out of 2
Position 1 out of 7
Position 2 out of 7
Position 3 out of 7
Position 4 out of 7
Position 5 out of 7
Position 6 out of 7
Position 7 out of 7
Sample 2 out of 2
Position 1 out of 7
Position 2 out of 7
Position 3 out of 7
Position 4 out of 7
Position 5 out of 7
Position 6 out of 7
Position 7 out of 7
Analyze Frequency
Sample 1
Sample 2
Report Variants
Sample 1
Sample 2
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in .bcfHeaderAsSimpleList(header) :
  duplicate keys in header will be forced to unique rownames
Warning in plot.window(xlim, ylim, log = log, ...) :
  `mgp[1:3]' are of differing sign
Warning in axis(if (horiz) 2 else 1, at = at.l, labels = names.arg, lty = axis.lty,  :
  `mgp[1:3]' are of differing sign
Warning in title(main = main, sub = sub, xlab = xlab, ylab = ylab, ...) :
  `mgp[1:3]' are of differing sign
Warning in axis(if (horiz) 1 else 2, cex.axis = cex.axis, ...) :
  `mgp[1:3]' are of differing sign
Warning in plot.window(xlim, ylim, log = log, ...) :
  `mgp[1:3]' are of differing sign
Warning in axis(if (horiz) 2 else 1, at = at.l, labels = names.arg, lty = axis.lty,  :
  `mgp[1:3]' are of differing sign
Warning in title(main = main, sub = sub, xlab = xlab, ylab = ylab, ...) :
  `mgp[1:3]' are of differing sign
Warning in axis(if (horiz) 1 else 2, cex.axis = cex.axis, ...) :
  `mgp[1:3]' are of differing sign
Error: processing vignette 'BBCAnalyzer.Rnw' failed with diagnostics:
unable to run pdflatex on 'BBCAnalyzer.tex'
LaTeX errors:
! LaTeX Error: File `textpos.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *> 
         
l.9 \usepackage
               {amssymb}^^M
!  ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘BBCAnalyzer.Rnw’

SUMMARY: processing the following file failed:
  ‘BBCAnalyzer.Rnw’

Error: Vignette re-building failed.
Execution halted